Knut Reinert
Orcid: 0000-0003-3078-8129Affiliations:
- Free University of Berlin, Germany
According to our database1,
Knut Reinert
authored at least 101 papers
between 1996 and 2024.
Collaborative distances:
Collaborative distances:
Timeline
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Online presence:
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on zbmath.org
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on orcid.org
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on d-nb.info
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on reinert.ws
On csauthors.net:
Bibliography
2024
Decoil: Reconstructing Extrachromosomal DNA Structural Heterogeneity from Long-Read Sequencing Data.
Proceedings of the Research in Computational Molecular Biology, 2024
Optimizing Job/Task Granularity for Metagenomic Workflows in Heterogeneous Cluster Infrastructures.
Proceedings of the Workshops of the EDBT/ICDT 2024 Joint Conference co-located with the EDBT/ICDT 2024 Joint Conference, 2024
Proceedings of the 20th IEEE International Conference on e-Science, 2024
2023
A mathematical programming approach for resource allocation of data analysis workflows on heterogeneous clusters.
J. Supercomput., November, 2023
Linear: a framework to enable existing software to resolve structural variants in long reads with flexible and efficient alignment-free statistical models.
Briefings Bioinform., March, 2023
A multi-view latent variable model reveals cellular heterogeneity in complex tissues for paired multimodal single-cell data.
Bioinform., January, 2023
2022
LaRA 2: parallel and vectorized program for sequence-structure alignment of RNA sequences.
BMC Bioinform., 2022
Needle: a fast and space-efficient prefilter for estimating the quantification of very large collections of expression experiments.
Bioinform., 2022
Co-Design for Energy Efficient and Fast Genomic Search: Interleaved Bloom Filter on FPGA.
Proceedings of the FPGA '22: The 2022 ACM/SIGDA International Symposium on Field-Programmable Gate Arrays, Virtual Event, USA, 27 February 2022, 2022
2021
SCORE: Smart Consensus Of RNA Expression - a consensus tool for detecting differentially expressed genes in bacteria.
Bioinform., 2021
RLM: fast and simplified extraction of read-level methylation metrics from bisulfite sequencing data.
Bioinform., 2021
Computational strategies to combat COVID-19: useful tools to accelerate SARS-CoV-2 and coronavirus research.
Briefings Bioinform., 2021
Proceedings of the BCB '21: 12th ACM International Conference on Bioinformatics, 2021
2020
PLoS Comput. Biol., 2020
ganon: precise metagenomics classification against large and up-to-date sets of reference sequences.
Bioinform., 2020
2018
Generic accelerated sequence alignment in SeqAn using vectorization and multi-threading.
Bioinform., 2018
Bioinform., 2018
2017
Vaquita: Fast and Accurate Identification of Structural Variation Using Combined Evidence.
Proceedings of the 17th International Workshop on Algorithms in Bioinformatics, 2017
EPR-Dictionaries: A Practical and Fast Data Structure for Constant Time Searches in Unidirectional and Bidirectional FM Indices.
Proceedings of the Research in Computational Molecular Biology, 2017
2016
Constant-time and space-efficient unidirectional and bidirectional FM-indices using EPR-dictionaries.
CoRR, 2016
BMC Bioinform., 2016
2015
Bioinform., 2015
LocalAli: an evolutionary-based local alignment approach to identify functionally <i>conserved</i> modules in multiple networks.
Bioinform., 2015
Methods for the detection and assembly of novel sequence in high-throughput sequencing data.
Bioinform., 2015
Proceedings of the Research in Computational Molecular Biology, 2015
2014
Bioinform., 2014
Journaled string tree - a scalable data structure for analyzing thousands of similar genomes on your laptop.
Bioinform., 2014
NetCoffee: a fast and accurate global alignment approach to identify functionally conserved proteins in multiple networks.
Bioinform., 2014
2013
J. Comput. Biol., 2013
Proceedings of the 5th International Workshop on Science Gateways, 2013
Scalable string similarity search/join with approximate seeds and multiple backtracking.
Proceedings of the Joint 2013 EDBT/ICDT Conferences, 2013
2012
Antilope - A Lagrangian Relaxation Approach to the de novo Peptide Sequencing Problem.
IEEE ACM Trans. Comput. Biol. Bioinform., 2012
CoRR, 2012
PPINGUIN: Peptide Profiling Guided Identification of Proteins improves quantitation of iTRAQ ratios.
BMC Bioinform., 2012
Detecting genomic indel variants with exact breakpoints in single- and paired-end sequencing data using SplazerS.
Bioinform., 2012
Proceedings of the Algorithms in Bioinformatics - 12th International Workshop, 2012
2011
BMC Bioinform., 2011
Biomarker Discovery and Redundancy Reduction towards Classification using a Multi-factorial MALDI-TOF MS T2DM Mouse Model Dataset.
BMC Bioinform., 2011
2010
ERCIM News, 2010
Proceedings of the Proteome Bioinformatics, 2010
2009
A consistency-based consensus algorithm for <i>de novo</i> and reference-guided sequence assembly of short reads.
Bioinform., 2009
Statistical quality assessment and outlier detection for liquid chromatography-mass spectrometry experiments.
BioData Min., 2009
Fast Structural Alignment of Biomolecules Using a Hash Table, N-Grams and String Descriptors.
Algorithms, 2009
Proceedings of the Efficient Algorithms, 2009
Biological Sequence Analysis Using the SeqAn C++ Library.
Chapman and Hall / CRC mathematical and computational biology series, CRC Press, ISBN: 978-1-4200-7623-3, 2009
2008
BMC Bioinform., 2008
BMC Bioinform., 2008
An Exact Mathematical Programming Approach to Multiple RNA Sequence-Structure Alignment.
Algorithmic Oper. Res., 2008
Proceedings of the Algorithms in Bioinformatics, 8th International Workshop, 2008
Proceedings of the ECCB'08 Proceedings, 2008
Proceedings of the Computational Proteomics, 02.03. - 07.03.2008, 2008
2007
Discret. Appl. Math., 2007
Accurate multiple sequence-structure alignment of RNA sequences using combinatorial optimization.
BMC Bioinform., 2007
A Fast and Accurate Algorithm for the Quantification of Peptides from Mass Spectrometry Data.
Proceedings of the Research in Computational Molecular Biology, 2007
A geometric approach for the alignment of liquid chromatography - mass spectrometry data.
Proceedings of the Proceedings 15th International Conference on Intelligent Systems for Molecular Biology (ISMB) & 6th European Conference on Computational Biology (ECCB), 2007
Proceedings of the German Conference on Bioinformatics, 2007
2006
Proceedings of the Biocomputing 2006, 2006
2005
Transformation and other factors of the peptide mass spectrometry pairwise peak-list comparison process.
BMC Bioinform., 2005
Calibration of mass spectrometric peptide mass fingerprint data without specific external or internal calibrants.
BMC Bioinform., 2005
Proceedings of the Algorithms in Bioinformatics, 5th International Workshop, 2005
Proceedings of the Computational Proteomics, 20.-25. November 2005, 2005
Proceedings of the Computational Proteomics, 20.-25. November 2005, 2005
Proceedings of the Computational Proteomics, 20.-25. November 2005, 2005
Algorithms for the Automated Absolute Quantification of Diagnostic Markers in Complex Proteomics Samples.
Proceedings of the Computational Life Sciences, First International Symposium, 2005
Proceedings of the Computational Life Sciences, First International Symposium, 2005
2004
Differenzielle Proteomanalyse - Experimentelle Methoden, algorithmische Herausforderungen (Differential Analysis in Proteomics: Experimental Methods, Algorithmic Challenges).
it Inf. Technol., 2004
Proceedings of the Proceedings Twelfth International Conference on Intelligent Systems for Molecular Biology/Third European Conference on Computational Biology 2004, 2004
2002
Proceedings of the Algorithms in Bioinformatics, Second International Workshop, 2002
Multiple sequence alignment with arbitrary gap costs: Computing an optimal solution using polyhedral combinatorics.
Proceedings of the European Conference on Computational Biology (ECCB 2002), 2002
2001
Proceedings of the Algorithms in Bioinformatics, First International Workshop, 2001
Proceedings of the Fifth Annual International Conference on Computational Biology, 2001
Proceedings of the IEEE 2001 Symposium on Parallel and Large-Data Visualization and Graphics, 2001
Design of a compartmentalized shotgun assembler for the human genome.
Proceedings of the Ninth International Conference on Intelligent Systems for Molecular Biology, 2001
2000
J. Comput. Biol., 2000
Bioinform., 2000
1999
Bioinform., 1999
Combining Divide-and-Conquer, the A<sup>*</sup>-Algorithm, and Successive Realignment Approaches to Speed Multiple Sequence Alignment.
Proceedings of the German Conference on Bioinformatics, 1999
1998
1997
Proceedings of the First Annual International Conference on Research in Computational Molecular Biology, 1997
1996
Proceedings of the Automata, Languages and Programming, 23rd International Colloquium, 1996